.gitattributes
.gitignore
LICENSE
README.md
pyproject.toml
conda-recipe/README.md
conda-recipe/meta.yaml
deeptaxa/__init__.py
deeptaxa/cli.py
deeptaxa/config.py
deeptaxa/dataset.py
deeptaxa/describe.py
deeptaxa/predict.py
deeptaxa/train.py
deeptaxa/tune.py
deeptaxa/utils.py
deeptaxa/models/__init__.py
deeptaxa/models/bert.py
deeptaxa/models/cnn.py
deeptaxa/models/hybrid.py
deeptaxa/models/losses.py
deeptaxa_rrna.egg-info/PKG-INFO
deeptaxa_rrna.egg-info/SOURCES.txt
deeptaxa_rrna.egg-info/dependency_links.txt
deeptaxa_rrna.egg-info/entry_points.txt
deeptaxa_rrna.egg-info/requires.txt
deeptaxa_rrna.egg-info/scm_file_list.json
deeptaxa_rrna.egg-info/scm_version.json
deeptaxa_rrna.egg-info/top_level.txt
q2_deeptaxa/__init__.py
q2_deeptaxa/_checkpoint.py
q2_deeptaxa/_formats.py
q2_deeptaxa/_methods.py
q2_deeptaxa/_taxonomy.py
q2_deeptaxa/_types.py
q2_deeptaxa/_visualizers.py
q2_deeptaxa/citations.bib
q2_deeptaxa/plugin_setup.py
q2_deeptaxa/tests/__init__.py
q2_deeptaxa/tests/test_actions.py
q2_deeptaxa/tests/test_checkpoint.py
q2_deeptaxa/tests/test_plugin.py
q2_deeptaxa/tests/test_taxonomy.py
scripts/calibration_diagnosis.sh
scripts/calibration_sweep.sh
scripts/deeptaxa_workflow.sh
scripts/run_ablation.sh
scripts/run_amplicon_eval.sh
scripts/run_experiment.sh
scripts/run_similarity_eval.sh
scripts/sequence_similarity.py
scripts/similarity_curve.py
scripts/simulate_amplicons.py
tutorials/.gitignore
tutorials/Makefile
tutorials/_quarto.yml
tutorials/analysis.qmd
tutorials/architecture.qmd
tutorials/custom.css
tutorials/index.qmd
tutorials/prediction.qmd
tutorials/references.bib
tutorials/render_tutorials.sh
tutorials/training.qmd